Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2A

Orthogroup ID

OG0002512

Physical Location & Seq

Genomic Coordinates Reverse (-)

60031006 .. 60033058

Gene Structure 2053 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2AG403000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 948 bp

ATGGACTCCATTGATGTGCTCATGCAAGTCCCAACATCGATAAGCGCTTATTTAGATCAAGAACTCGATAAGCGCTTCAACGTCCTCAAGCTCTGGACTGTCCCTAACAAAACCCAGTTCATCAAGGACAACTCCAGTTCCATCCGAGCCATCGTCGGCCACGGCGGCGCTGGAGCTGATGCCGAACTCATTGACAGTCTGCCCAACTTGGAGATCATCTCCAGCTTAAGCGTTGGGACGGACAAGATTGATTTGAAGAAATGCAAGGAAAAGGGTATTCGGGTCACCAACACACCCGACGTGTTGACCGATGACGTGGCCGACATCGCCATCGGGTTGGCGCTGGCGGTCATGCGGAGGCTGTGTGAGAGTGACCGCTATGTCAGGAGTGGGCAGTGGAAGAAGGGTGACTACAAGTTGACCACAAAGTTCACCGGAAAAACAGTTGGTATCATCGGTTTGGGAAGAATCGGCAAAGCAGTTGCCAAGAGAGCTGAGGCTTTTAGCTGCCCCATTGCCTACTTCTCCAGAACAGAAAAACCAGAATTGAAGTACAAGTATTATCCTACTGTTGTGGAATTGGCCTCTAACTGTGATGTTCTAGTTGTTGCGTGCCCACTCACTGGAGAAACCTGCCACATTATCAATCGTGAAGTCATTGATGCATTGGGGCCAAAGGGTGTTCTCATTAACATTGGGAGGGGTCATCATGTTGATGAGCCTGAGTTAGTATCTGCACTGCTAGAAGGCCGATTAGGTGGAGCTGGCCTCGATGTGTATCAAAATGAACCAGAGGTACCAGAGCAGCTGTTTGGTCTTGAAAATGTGGTGCTCTTGCCTCATGCAGGAAGTGGTACTACTGAAACTCGCAATGCAATGGCTGACCTTGTTATTGGGAATCTTGAGGCTCACTTCTTGAACAAACCATTGCTGACCCCTGTGGTTTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0008150 GO:0008152 GO:0009853 GO:0009854 GO:0009987 GO:0016491 GO:0016614 GO:0016616 GO:0016618 GO:0030267 GO:0043094 GO:0044237 GO:0044424 GO:0044444 GO:0044464 GO:0055114

KEGG Pathways

Metabolic & Signaling

ko00130 ko00260 ko00350 ko00360 ko00630 ko00960 ko01100 ko01110 ko01130 ko01200 map00130 map00260 map00350 map00360 map00630 map00960 map01100 map01110 map01130 map01200

Pfam Domains

Protein Families

2-Hacid_dh 2-Hacid_dh_C

Protein Analysis

315

Amino Acids

34.18

Weight (kDa)

5.76

Isoelectric Point (pI)

27.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
2-Hacid_dh	PF00389	20 - 314	5.3e-24	D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain
2-Hacid_dh_C	PF02826	111 - 283	2.7e-53	D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0002512)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G79870 AT1G79870
fragaria_vesca	FvH4_6g31711 FvH4_6g31720 FvH4_6g31721
malus_domestica	MD09G1209700.v1.1 MD09G1209800.v1.1 MD17G1191700.v1.1
prunus_persica	Prupe.3G067700_v2.0.a1 Prupe.3G067700_v2.0.a1 Prupe.3G067700_v2.0.a1 Prupe.3G067800_v2.0.a1
pyrus_communis	pycom09g12600 pycom09g12630 pycom17g19870
rosa_chinensis	RchiOBHm_Chr2g0138801 RchiOBHm_Chr2g0138891 RchiOBHm_Chr2g0138911
rosa_laevigata	RLG00000019761 RLG00000019763 RLG00000019764
rosa_multiflora	Rmu_co8474001.1_g000001 Rmu_sc0010783.1_g000009 Rmu_sc0011444.1_g000002 Rmu_sc0016387.1_g000002 Rmu_sc0017407.1_g000002
rosa_roxburghii	Rroxscaffold_2G00105920 Rroxscaffold_2G00105950
rosa_rugosa	Rorug02G0352600 Rorug02G0352800 Rorug02G0352900
rosa_samantha	Rh2AG402500 Rh2AG403000 Rh2BG411600 Rh2CG388600 Rh2DG422700 Rh2DG423100 Rh2DG423200
rosa_wichuraiana	Rw2G032720 Rw2G032780 Rw2G032790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	380
Acc36I	ACCTGC	1 cut(s)	641
Acc65I	GGTACC	1 cut(s)	796
AccB1I	GGYRCC	1 cut(s)	796
AccB7I	CCANNNNNTGG	1 cut(s)	623
AciI	CCGC	4 cut(s)	165, 347, 355, 376
AcoI	YGGCCR	2 cut(s)	157, 318
AfaI	GTAC	3 cut(s)	554, 798, 856
AfeI	AGCGCT	2 cut(s)	46, 74
AfiI	CCNNNNNNNGG	2 cut(s)	623, 845
AflII	CTTAAG	1 cut(s)	226
AflIII	ACRYGT	1 cut(s)	300
AgsI	TTSAA	5 cut(s)	79, 256, 550, 821, 919
AjiI	CACGTC	2 cut(s)	301, 316
AluBI	AGCT	7 cut(s)	91, 176, 225, 494, 507, 764, 808
AluI	AGCT	7 cut(s)	91, 176, 225, 494, 507, 764, 808
Alw21I	GWGCWC	2 cut(s)	21, 834
Aor51HI	AGCGCT	2 cut(s)	46, 74
AoxI	GGCC	6 cut(s)	157, 318, 582, 671, 748, 766
ApeKI	GCWGC	2 cut(s)	507, 805
Asp718I	GGTACC	1 cut(s)	796
AspLEI	GCGC	4 cut(s)	47, 75, 170, 343
AspS9I	GGNCC	1 cut(s)	671
AsuHPI	GGTGA	3 cut(s)	277, 419, 424
BaeGI	GKGCMC	1 cut(s)	617
BanI	GGYRCC	1 cut(s)	796
BarI	GAAGNNNNNNTAC	4 cut(s)	395, 427, 841, 873
Bbv12I	GWGCWC	2 cut(s)	21, 834
BbvCI	CCTCAGC	1 cut(s)	495
BbvI	GCAGC	2 cut(s)	494, 817
BccI	CCATC	3 cut(s)	149, 158, 338
BceAI	ACGGC	1 cut(s)	178
BfaI	CTAG	2 cut(s)	602, 743
BfoI	RGCGCY	4 cut(s)	48, 76, 171, 344
BfrI	CTTAAG	1 cut(s)	226
BfuAI	ACCTGC	1 cut(s)	641
BglI	GCCNNNNNGGC	1 cut(s)	165
BisI	GCNGC	3 cut(s)	166, 508, 806
BlsI	GCNGC	3 cut(s)	167, 509, 807
BmgBI	CACGTC	2 cut(s)	301, 316
BmgT120I	GGNCC	1 cut(s)	671
BmiI	GGNNCC	2 cut(s)	672, 798
BmrI	ACTGGG	1 cut(s)	109
BmsI	GCATC	2 cut(s)	169, 652
BmuI	ACTGGG	1 cut(s)	109
BplI	GAGNNNNNCTC	4 cut(s)	203, 235, 753, 785
BpmI	CTGGAG	5 cut(s)	118, 192, 205, 511, 645
Bpu10I	CCTNAGC	1 cut(s)	495
BpuEI	CTTGAG	2 cut(s)	71, 923
Bsa29I	ATCGAT	1 cut(s)	38
BsaBI	GATNNNNATC	1 cut(s)	777
BsaJI	CCNNGG	1 cut(s)	160
BsaWI	WCCGGW	1 cut(s)	434
BsaXI	ACNNNNNCTCC	2 cut(s)	349, 379
Bsc4I	CCNNNNNNNGG	2 cut(s)	623, 845
Bse1I	ACTGG	3 cut(s)	115, 135, 628
Bse3DI	GCAATG	4 cut(s)	513, 877, 882, 926
Bse8I	GATNNNNATC	1 cut(s)	777
BseCI	ATCGAT	1 cut(s)	38
BseDI	CCNNGG	1 cut(s)	160
BseGI	GGATG	1 cut(s)	141
BseJI	GATNNNNATC	1 cut(s)	777
BseLI	CCNNNNNNNGG	2 cut(s)	623, 845
BseMI	GCAATG	4 cut(s)	513, 877, 882, 926
BseMII	CTCAG	2 cut(s)	486, 714
BseNI	ACTGG	3 cut(s)	115, 135, 628
BseSI	GKGCMC	1 cut(s)	617
BseXI	GCAGC	2 cut(s)	494, 817
BsgI	GTGCAG	1 cut(s)	720
BshFI	GGCC	6 cut(s)	159, 320, 584, 673, 750, 768
BshNI	GGYRCC	1 cut(s)	796
BshVI	ATCGAT	1 cut(s)	38
BsiHKAI	GWGCWC	2 cut(s)	21, 834
BsiSI	CCGG	1 cut(s)	435
BslFI	GGGAC	3 cut(s)	14, 86, 250
BslI	CCNNNNNNNGG	2 cut(s)	623, 845
BsmFI	GGGAC	3 cut(s)	14, 86, 250
BsnI	GGCC	6 cut(s)	159, 320, 584, 673, 750, 768
Bsp1286I	GDGCHC	3 cut(s)	21, 617, 834
Bsp143I	GATC	2 cut(s)	55, 213
BspACI	CCGC	4 cut(s)	165, 347, 355, 376
BspANI	GGCC	6 cut(s)	159, 320, 584, 673, 750, 768
BspCNI	CTCAG	2 cut(s)	487, 715
BspDI	ATCGAT	1 cut(s)	38
BspLI	GGNNCC	2 cut(s)	672, 798
BspMI	ACCTGC	1 cut(s)	641
BspT107I	GGYRCC	1 cut(s)	796
BspTI	CTTAAG	1 cut(s)	226
BsrDI	GCAATG	4 cut(s)	513, 877, 882, 926
BsrI	ACTGG	3 cut(s)	115, 135, 628
BssECI	CCNNGG	1 cut(s)	160
BssMI	GATC	2 cut(s)	55, 213
Bst4CI	ACNGT	5 cut(s)	100, 197, 445, 571, 593
BstAFI	CTTAAG	1 cut(s)	226
BstC8I	GCNNGC	3 cut(s)	345, 613, 766
BstDEI	CTNAG	2 cut(s)	495, 723
BstDSI	CCRYGG	1 cut(s)	160
BstEII	GGTNACC	1 cut(s)	283
BstENI	CCTNNNNNAGG	1 cut(s)	843
BstF5I	GGATG	1 cut(s)	141
BstH2I	RGCGCY	4 cut(s)	48, 76, 171, 344
BstHHI	GCGC	4 cut(s)	47, 75, 170, 343
BstKTI	GATC	2 cut(s)	58, 216
BstMBI	GATC	2 cut(s)	55, 213
BstMWI	GCNNNNNNNGC	3 cut(s)	165, 326, 491
BstPI	GGTNACC	1 cut(s)	283
BstSLI	GKGCMC	1 cut(s)	617
BstV1I	GCAGC	2 cut(s)	494, 817
BstXI	CCANNNNNNTGG	1 cut(s)	337
Bsu15I	ATCGAT	1 cut(s)	38
BsuRI	GGCC	6 cut(s)	159, 320, 584, 673, 750, 768
BsuTUI	ATCGAT	1 cut(s)	38
BtgI	CCRYGG	1 cut(s)	160
BtgZI	GCGATG	1 cut(s)	310
BtrI	CACGTC	2 cut(s)	301, 316
BtsCI	GGATG	1 cut(s)	141
BtsI	GCAGTG	2 cut(s)	401, 737
BtsIMutI	CAGTG	3 cut(s)	401, 621, 737
BveI	ACCTGC	1 cut(s)	641
Cac8I	GCNNGC	3 cut(s)	345, 613, 766
CfoI	GCGC	4 cut(s)	47, 75, 170, 343
Cfr13I	GGNCC	1 cut(s)	671
ClaI	ATCGAT	1 cut(s)	38
Csp6I	GTAC	3 cut(s)	553, 797, 855
CviAII	CATG	4 cut(s)	22, 352, 710, 842
CviQI	GTAC	3 cut(s)	553, 797, 855
DdeI	CTNAG	2 cut(s)	495, 723
DpnI	GATC	2 cut(s)	57, 215
DpnII	GATC	2 cut(s)	55, 213
DrdI	GACNNNNNNGTC	1 cut(s)	380
DseDI	GACNNNNNNGTC	1 cut(s)	380
EaeI	YGGCCR	2 cut(s)	157, 318
Eco47III	AGCGCT	2 cut(s)	46, 74
Eco91I	GGTNACC	1 cut(s)	283
EcoNI	CCTNNNNNAGG	1 cut(s)	843
EcoO65I	GGTNACC	1 cut(s)	283
EcoT22I	ATGCAT	1 cut(s)	667
FaeI	CATG	4 cut(s)	25, 355, 713, 845
FaiI	YATR	5 cut(s)	23, 353, 381, 711, 843
FaqI	GGGAC	3 cut(s)	14, 86, 250
FatI	CATG	4 cut(s)	21, 351, 709, 841
Fnu4HI	GCNGC	3 cut(s)	166, 508, 806
FokI	GGATG	1 cut(s)	128
Fsp4HI	GCNGC	3 cut(s)	166, 508, 806
FspBI	CTAG	2 cut(s)	602, 743
GlaI	GCGC	4 cut(s)	46, 74, 169, 342
GluI	GCNGC	3 cut(s)	166, 508, 806
GsuI	CTGGAG	5 cut(s)	118, 192, 205, 511, 645
HaeII	RGCGCY	4 cut(s)	48, 76, 171, 344
HaeIII	GGCC	6 cut(s)	159, 320, 584, 673, 750, 768
HapII	CCGG	1 cut(s)	435
HhaI	GCGC	4 cut(s)	47, 75, 170, 343
Hin1II	CATG	4 cut(s)	25, 355, 713, 845
Hin6I	GCGC	4 cut(s)	45, 73, 168, 341
HinP1I	GCGC	4 cut(s)	45, 73, 168, 341
HincII	GTYRAC	2 cut(s)	306, 420
HindII	GTYRAC	2 cut(s)	306, 420
HinfI	GANTC	3 cut(s)	5, 468, 898
HpaII	CCGG	1 cut(s)	435
HphI	GGTGA	3 cut(s)	277, 419, 424
Hpy166II	GTNNAC	3 cut(s)	306, 420, 432
Hpy188I	TCNGA	1 cut(s)	146
Hpy188III	TCNNGA	8 cut(s)	59, 94, 385, 528, 650, 818, 902, 916
Hpy8I	GTNNAC	3 cut(s)	306, 420, 432
Hpy99I	CGWCG	2 cut(s)	158, 302
HpyAV	CCTTC	2 cut(s)	397, 740
HpyCH4III	ACNGT	5 cut(s)	100, 197, 445, 571, 593
HpyCH4IV	ACGT	3 cut(s)	81, 300, 315
HpyCH4V	TGCA	6 cut(s)	25, 264, 665, 737, 845, 875
HpyF10VI	GCNNNNNNNGC	3 cut(s)	165, 326, 491
HpyF3I	CTNAG	2 cut(s)	495, 723
HpySE526I	ACGT	3 cut(s)	81, 300, 315
Hsp92II	CATG	4 cut(s)	25, 355, 713, 845
HspAI	GCGC	4 cut(s)	45, 73, 168, 341
KpnI	GGTACC	1 cut(s)	800
Kzo9I	GATC	2 cut(s)	55, 213
LmnI	GCTCC	2 cut(s)	173, 761
Lsp1109I	GCAGC	2 cut(s)	494, 817
LweI	GCATC	2 cut(s)	169, 652
MaeI	CTAG	2 cut(s)	602, 743
MaeII	ACGT	3 cut(s)	81, 300, 315
MaeIII	GTNAC	3 cut(s)	283, 371, 407
MalI	GATC	2 cut(s)	57, 215
MboI	GATC	2 cut(s)	55, 213
MboII	GAAGA	3 cut(s)	268, 412, 477
MhlI	GDGCHC	3 cut(s)	21, 617, 834
MluCI	AATT	2 cut(s)	545, 578
MnlI	CCTC	9 cut(s)	95, 351, 490, 595, 693, 779, 787, 849, 898
Mph1103I	ATGCAT	1 cut(s)	667
MseI	TTAA	3 cut(s)	227, 690, 946
MslI	CAYNNNNRTG	2 cut(s)	14, 714
MspA1I	CMGCKG	1 cut(s)	808
MspCI	CTTAAG	1 cut(s)	226
MspI	CCGG	1 cut(s)	435
MwoI	GCNNNNNNNGC	3 cut(s)	165, 326, 491
NdeII	GATC	2 cut(s)	55, 213
NlaIII	CATG	4 cut(s)	25, 355, 713, 845
NlaIV	GGNNCC	2 cut(s)	672, 798
NmuCI	GTSAC	3 cut(s)	283, 371, 407
NsiI	ATGCAT	1 cut(s)	667
PcsI	WCGNNNNNNNCGW	1 cut(s)	306
PfeI	GAWTC	2 cut(s)	468, 898
PflMI	CCANNNNNTGG	1 cut(s)	623
PkrI	GCNGC	3 cut(s)	167, 509, 807
PspEI	GGTNACC	1 cut(s)	283
PspN4I	GGNNCC	2 cut(s)	672, 798
PspPI	GGNCC	1 cut(s)	671
PsrI	GAACNNNNNNTAC	2 cut(s)	780, 812
PvuII	CAGCTG	1 cut(s)	808
RsaI	GTAC	3 cut(s)	554, 798, 856
RsaNI	GTAC	3 cut(s)	553, 797, 855
RseI	CAYNNNNRTG	2 cut(s)	14, 714
SaqAI	TTAA	3 cut(s)	227, 690, 946
SatI	GCNGC	3 cut(s)	166, 508, 806
Sau3AI	GATC	2 cut(s)	55, 213
Sau96I	GGNCC	1 cut(s)	671
SduI	GDGCHC	3 cut(s)	21, 617, 834
SfaNI	GCATC	2 cut(s)	169, 652
SmiMI	CAYNNNNRTG	2 cut(s)	14, 714
SmlI	CTYRAG	3 cut(s)	86, 226, 902
SmoI	CTYRAG	3 cut(s)	86, 226, 902
Sse9I	AATT	2 cut(s)	545, 578
SsiI	CCGC	4 cut(s)	165, 347, 355, 376
SspMI	CTAG	2 cut(s)	602, 743
TaaI	ACNGT	5 cut(s)	100, 197, 445, 571, 593
TaiI	ACGT	3 cut(s)	84, 303, 318
TaqI	TCGA	3 cut(s)	38, 66, 771
TaqII	GACCGA	1 cut(s)	323
TasI	AATT	2 cut(s)	545, 578
TatI	WGTACW	1 cut(s)	552
TauI	GCSGC	1 cut(s)	168
TfiI	GAWTC	2 cut(s)	468, 898
Tru1I	TTAA	3 cut(s)	227, 690, 946
Tru9I	TTAA	3 cut(s)	227, 690, 946
TscAI	CASTG	3 cut(s)	401, 628, 744
TseFI	GTSAC	3 cut(s)	283, 371, 407
TseI	GCWGC	2 cut(s)	507, 805
Tsp45I	GTSAC	3 cut(s)	283, 371, 407
TspDTI	ATGAA	2 cut(s)	109, 801
TspGWI	ACGGA	1 cut(s)	254
TspRI	CASTG	3 cut(s)	401, 628, 744
Van91I	CCANNNNNTGG	1 cut(s)	623
Vha464I	CTTAAG	1 cut(s)	226
XagI	CCTNNNNNAGG	1 cut(s)	843
XcmI	CCANNNNNNNNNTGG	1 cut(s)	167
XspI	CTAG	2 cut(s)	602, 743
Zsp2I	ATGCAT	1 cut(s)	667

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.